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|  Mass Spectrometry-GUided Immunoassay DEvelopment (MS-GUIDE) | Homo sapiens | Orbitrap Fusion ETD,Q Exactive Plus | Yes | 2 | prostate cancer, serum, glycocapture, biomarker, ELISA, PRM | publication pending | PXD016976 |
| Detection of head and neck cancer based on longitudinal changes in serum protein abundance | Homo sapiens | TSQ Altis | Yes | 14 | Early detection, DOD serum repository, head and neck squamous cell carcinoma, longitudinal serum biomarker, targeted proteomics | Cancer Epidemiology, Biomarkers & Prevention | |
| Identification of cGAS post-translational modifications | Homo sapiens | Q Exactive HF | No | 2 | phosphorylation, acetylation, immune response, herpesvirus, IP-MS | Song B, Greco TM, Lum KK, Taber CE, Cristea IM.... | PXD017133 |
| Inter-ViSTA: Targeted validation of temporal pUL37 interactors | Homo sapiens | Q Exactive HF | No | 6 | HCMV, IP-MS, PRM, pUL37 | Federspiel JD, Cook KC, Kennedy MA, Venkatesh S... | PXD013848 |
| Targeted Mass Spectrometry of a Clinically Relevant PSA Variant from Post-DRE Urines for Quantitation and Genotype Determination | Homo sapiens | Orbitrap Fusion Lumos | Yes | 1 | PRM, Urine, Prostate Cancer, PSA, Genotype | Otto JJ, Correll VL, Engstroem HA, Hitefield NL... | PXD017257 |
| From coarse to fine: The absolute Escherichia coli proteome under diverse growth conditions | Escherichia coli | TripleTOF 5600 | Yes | 1 | Escherichia coli, absolute protein quantification, AQUA, xTop, DIA, SWATH, targeted proteomics | Mori M, Zhang Z, Banaei-Esfahani A, Lalanne JB,... | PXD017258 |
| A mouse brain-based multi-omics integrative approach reveals potential blood biomarkers for ischemic stroke | Mus musculus | LTQ Orbitrap Velos | No | 1 | ischemic stroke; proteomics; transcriptomics; integrative analysis; biomarkers | Simats A, Ramiro L, García-Berrocoso T, Briansó... | PXD017280 |
| Parallel reaction monitoring assay development for multiple sclerosis biomarkers in cerebrospinal fluid. | Homo sapiens, Rattus norvegicus | Q Exactive HF | Yes | 8 | parallel reaction monitoring, cerebrospinal fluid, multiple sclerosis, neurological diseases, proteomics, biomarker | Guldbrandsen A, Lereim RR, Jacobsen M, Garberg ... | PXD017281 |
| Identification of Isopeptides Between Human Tissue Transglutaminase and Wheat, Rye, and Barley Gluten Peptides | common wheat, rye, barley, Homo sapiens | Q Exactive HF | No | 11 | celiac disease, gluten, isopeptides, mass spectrometry, transglutaminase | Lexhaller B, Ludwig C, Scherf KA. Identificatio... | PXD017693 |
| PINE: An Automation Tool to Extract & Visualize Functionally Enriched Networks from Mass Spectrometry-Based Proteomics Datasets | Mus musculus | Orbitrap Fusion Lumos | No | 1 | Proteomics, data visualization, enriched networks, automated bioinformatics tool, post-translational modifications | Sundararaman N, Go J, Robinson AE, Mato JM, Lu ... | PXD017324 |
| LipidCreator: A workbench to probe the lipidomic landscape | Homo sapiens | Q Exactive HF,QTRAP 6500 | Yes | 4 | | Peng B, Kopczynski D, Pratt BS, Ejsing CS, Burl... | |
| Mapping of the multiple myeloma cell surface N-glycoproteome and targeted validation
in patient samples uncovers immunotherapy targets | Homo sapiens | Orbitrap Fusion Lumos | No | 3 | Cell Surface Capture, PRM, Multiple Myeloma | Oldham RAA, Faber ML, Keppel TR, Buchberger AR,... | PXD017692 |
| Interspecies assertiveness of Lactobacillus curvatus and Lactobacillus sakei in sausage fermentations | Lactobacillus curvatus subsp. curvatus | Q Exactive HF-X | No | 1 | Lactobacillus curvatus, Lactobacillus sakei, fermented sausage, assertiveness, stress tolerance, bacteriocin | Janßen D, Dworschak L, Ludwig C, Ehrmann MA, Vo... | PXD017183 |
| Global Chromatin Profiling Dataset of Chemical Perturbations in Multiple Biological Backgrounds | Homo sapiens | Q Exactive Plus | Yes | 28 | Targeted mass spectrometry, proteomics, histones, epigenetics, post-translational modification | Dele-Oni DO, Christianson KE, Egri SB, Vaca Jac... | PXD017459 |
| Phospho-proteomic Profiling Dataset of Chemical Perturbations in Multiple Biological Backgrounds | Homo sapiens | Q Exactive HF | Yes | 28 | Data-Independent Acquisition, mass spectrometry, proteomics, phospho-signaling, phosphoproteomics | Dataset with its publication pending | PXD017458 |
| Proteomics of osmoregulatory versus general stress responses in threespine stickleback gills | Gasterosteus aculeatus | impact II | No | 6 | Salinity, Fish, Osmoregulation, Stress, Gill, DIA | Li J, Kültz D. Proteomics of Osmoregulatory Res... | PXD017662 |
| Clinical application of multiple reaction monitoring-mass spectrometry to HER2 measurements as a potential diagnostic tool for breast cancer therapy | Homo sapiens | 6490 Triple Quadrupole LC/MS | No | 7 | breast cancer, human epidermal growth factor receptor 2 (HER2), formalin-fixed paraffin-embedded (FFPE), targeted proteomics, multiple reaction monitoring-mass spectrometry (MRM-MS) | Do M, Kim H, Yeo I, Lee J, Park IA, Ryu HS, Kim... | PXD017691 |
| Acarbose improves late-life physical function in mice of both sexes, but rejuvenates cardiac structure and lipid profile in males only | Mus musculus | Orbitrap Fusion Lumos | No | 2 | data independent acquisition, Type 2 diabetes, acarbose, age-related disease | Herrera JJ, Louzon S, Pifer K, Leander D, Merri... | PXD017706 |
| Targeted FLNc S2233 S2236 phosphorylation assay | Homo sapiens, Mus musculus | Q Exactive Plus | Yes | 3 | FLNc, phosphoproteomics, PRM assay | | |
| MitoPlex: A Targeted Multiple Reaction Monitoring Assay for Quantification of a Curated Set of Mitochondrial Proteins | Mus musculus | QTRAP 6500+,TripleTOF 5600+ | Yes | 7 | Mitoplex, MRM, metabolomics, statin myopathy, striated muscle, mitochondrial function | Stotland AB, Spivia W, Orosco A, Andres AM, Got... | PXD017884 |
| Accurate MS-based Rab10 phosphorylation stoichiometry determination as a readout for LRRK2 activity in Parkinson’s disease | Homo sapiens, Mus musculus | Q Exactive HF,Q Exactive HF-X | Yes | 4 | Rab10, phosphorylation, LRRK2, Parkinson's Disease | Karayel O, Tonelli F, Virreira Winter S, et al.... | |
| Malignant pleural mesothelioma targeted proteomics signature from blood | Homo sapiens | Xevo TQ-S | No | 57 | mesothelioma, asbestos exposed, SRM | Cerciello F, Choi M, Sinicropi-Yao SL, Lomeo K,... | PXD018457 |
| Antibody-free targeted proteomics assay for absolute measurement of α-tubulin acetylation | Homo sapiens, Mus musculus | 6490 Triple Quadrupole LC/MS | Yes | 2 | α-tubulin acetylation | Shah AK, Wali G, Sue CM, Mackay-Sim A, Hill MM.... | PXD018626 |
| Highly Multiplex Targeted Proteomics Enabled by Real-Time Chromatographic Alignment | Homo sapiens | Orbitrap Fusion Lumos | No | 1 | proteomics, technology development, parallel reaction monitoring, alignment, scheduling | Remes PM, Yip P, MacCoss MJ. Highly Multiplex T... | PXD018675 |
| Insights in the molecular kinetics and dynamics of the furin-cleaved form of PCSK9 | Homo sapiens | LTQ Velos | No | 1 | cardiovascular disease, cholesterol, lipoprotein metabolism, LDL, LDLR, proteases, secretory pathway, posttranslational modifications, function | Oleaga C, Hay J, Gurcan E, David LL, Mueller PA... | PXD018700 |
| Analysis of Immune Checkpoint Drug Targets and Tumor Proteotypes in Non-Small Cell Lung Cancer | Homo sapiens | Orbitrap Fusion Lumos | Yes | 4 | FFPE NSCLC PRM | Liebler DC, Holzer TR, Haragan A, Morrison RD, ... | PXD019061 |
| Proteomic Tissue-based Classifier for Early Prediction of Prostate Cancer Progression | Homo sapiens | TSQ Vantage | Yes | 381 | biochemical recurrence, biomarkers, early detection, metastasis, prostate cancer, proteomics | Gao Y, Wang Y-T, Chen Y, Wang H, Young D, Shi T... | |
| Translation Error Clusters Induced by Aminoglycoside Antibiotics | Escherichia coli | Q Exactive HF-X,Q Exactive Plus,Q Exactive HF | Yes | 75 | aminoglycosides, ribosome, miscoding, misreading, antibiotics | Wohlgemuth I, Garofalo R, Samatova E, Günenç AN... | PXD019328 |
| Antibody RING-Mediated Destruction (ARMeD) of endogenous proteins | Homo sapiens | Q Exactive | No | 1 | ARMeD Endogenous Protein Knockdown | Ibrahim AFM, Shen L, Tatham MH, Dickerson D, Pr... | PXD016193 |
| Marked increased production of acute phase reactants by skeletal muscle during cancer cachexia | Mus musculus | Xevo TQ-S,nanoACQUITY UPLC System with 1D Technology | Yes | 2 | Cancer, Cachexia, Skeletal muscle, Proteomics, Secretome, Acute phase reactants | Massart IS, Paulissen G, Loumaye A, Lause P, Pö... | PXD019433 |
| Discovery of biomarker candidates associated with the risk of short- and long-term relapse after infliximab withdrawal in Crohn’s patients: a proteomics-based study | Homo sapiens | Xevo TQ-S | No | 4 | Crohn's disease, biomarkers, relapse, selected reaction monitoring | Pierre N, Baiwir D, Huynh-Thu VA, Mazzucchelli ... | PXD019434 |
| Phosphoproteomic Effects of Acute Depletion of PP2A Regulatory Subunit Cdc55 | Saccharomyces cerevisiae | Orbitrap Fusion | No | 3 | targeted MS, PRM, protein phosphatase, PP2A, degron | Plank M, Berti M, Loewith R. Phosphoproteomic E... | PXD019534 |
| Process and Workflow for Preparation of Disparate Mouse Tissues for Proteomic Analysis | Mus musculus | 6495B Triple Quadrupole LC/MS | Yes | 45 | Tissue proteomics, mass spectrometry, sample preparation, homogenization, acetone precipitation, tissue lyophilization | Michaud SA, Pětrošová H, Jackson AM, McGuire JC... | PXD019539 |
| Data, reagents, assays and merits of proteomics for SARS-CoV-2 research and testing | SARS-CoV-2, Homo sapiens | Orbitrap Fusion Lumos | Yes | 7 | SARS-CoV-2, proteomics, mass spectrometry, stable isotope labeling, parallel reaction monitoring, Vero E6, ACE2, infectome, nasopharyngeal swabs | Zecha J, Lee CY, Bayer FP, Meng C, Grass V, Zer... | PXD019680 |
| Phage Phix174 - Wildtype and engineered proteome | Escherichia virus phiX174, phiX174.1f | Q Exactive | No | 1 | Overlapping genes, bacteriophage, virus | Wright BW, Ruan J, Molloy MP, Jaschke PR. Genom... | PXD019681 |
| Multiplexed MRM-based protein quantification of putative prognostic biomarkers for chronic kidney disease progression in plasma. | Homo sapiens | 4000 QTRAP | Yes | 13 | CKD, plasma, proteomics, MRM, biomarkers | Multiplexed MRM-based protein quantification of... | |
| PRM Quantification of TET2, GATA3 and ER | Homo sapiens | Q Exactive HF | Yes | 6 | Parallel Reaction Monitoring, PRM, Q Exactive-HF, protein quantification, TET2, Estrogen Receptor, GATA3 | | PXD019726 |
| Seasonally relevant changes in UV-A alter neurohormone levels and behavior via cOpsin1 | Platynereis dumerilii | Q Exactive HF-X | No | 3 | Targeted MS, PRM, quantification, neurohormones | Veedin Rajan VB, Häfker NS, Arboleda E, Poehn B... | PXD014682 |
| Identification of candidate circulating glucocorticoid response biomarkers in humans using a proteomic approach | Homo sapiens | LCMS-8050 | No | 1 | Proteomics, PBMC, glucocorticoid, dexamethasone, biomarker | Inder WJ, Mohamed A, Keshvari S, Barclay JL, Ru... | PXD019972 |
| S-Adenosylmethionine Depletion Activates La Ribonucleoprotein Domain
Family Member 1 to Induce Protein Translation | Homo sapiens, Mus musculus | Orbitrap Fusion Lumos,TripleTOF 6600 | No | 3 | NASH, liver, phospho, DIA, DDA, CDK2, Nonalcoholic Steatohepatitis, Hepatocellular carcinoma | | PXD020015 |
| ADAM17 cytoplasmic domain modulates Thioredoxin-1 | Homo sapiens | Xevo TQ-XS | Yes | 1 | Trx-1 ADAM17 disulfide bond shuffle | E Costa RAP, Granato DC, Trino LD, Yokoo S, Car... | PXD020016 |
| Combined Peptidomic and Proteomic analysis of OSCC Saliva | Homo sapiens | Xevo TQ-XS,ACQUITY UPLC | Yes | 1 | saliva, oral cancer, peptidome, proteolysis, protease inhibitors, oral squamous cell carcinoma | Neves LX, Granato DC, Busso-Lopes AF, Carnielli... | PXD020237 |
| Development of a potential salivary biomarker panel for Oral Squamous Cell Carcinoma using a proteomics-based approach. | Homo sapiens | Orbitrap Fusion | Yes | 2 | Oral Squamous Cell Carcinoma, Targeted proteomics, Parallel Reaction Monitoring, Biomarker, Early diagnosis, Diagnostic panel | Jain A, Kotimoole CN, Ghoshal S, Bakshi J, Chat... | PXD020263 |
| Validation of the MiXCR/HIGH-VQUEST pipeline for the selection of clonotypic peptides in MM cell lines | Homo sapiens | Xevo TQ-S | Yes | 1 | clonotypic peptides, MRD, validation, Multiple Myeloma | Langerhorst P, Brinkman AB, VanDuijn MM, Wessel... | |
| Targeted proteomics measurements for Genetically controlled membrane synthesis in liposomes | Escherichia coli | 6460 Triple Quadrupole LC/MS | No | 2 | PURE, cell free, synthetic cell, gene expression, lipid biosynthesis | Blanken D, Foschepoth D, Serrão AC, Danelon C. ... | PXD020399 |
| Rat nerve axoplasm RBPs | Rattus norvegicus | Q Exactive Plus | No | 1 | PRM, axonal injury, axoplasm | Patel P, Buchanan C, Kar AN, Lee SJ, Urisman A,... | |
| Detection of flg22 peptide upon treatment with different Arabidopsis root-derived bacterial supernatant | Arabidopsis thaliana | Q Exactive | No | 1 | Arabidopsis thaliana, root-growth inhibition, root commensals, flg22 | Dataset with its publication pending | PXD020452 |
| An Optimised Proteomics Workflow for the Detection of Small Proteins. | Bacillus subtilis | Q Exactive | No | 1 | proteogenomics, Bacillus subtilis, SEPs, sProteins, Lys-C, small protein enrichment, PRM | Bartel J, Varadarajan AR, Sura T, Ahrens CH, Ma... | PXD020514 |
| Combining label-free and label-based accurate quantifications with SWATH-MS: comparison with SRM and PRM for the evaluation of bovine muscle type effects. | Bos taurus | TripleTOF 6600,Q Exactive Plus,TSQ Vantage | Yes | 10 | Beef meat quality; Data-Independent Acquisition (DIA); Quantitative MS; SWATH-MS; Targeted proteomics | Bons J, Husson G, Chion M, Bonnet M, Maumy-Bert... | PXD020680 |
| Comparative quantitative LC-MS/MS analysis of 13 amylase/trypsin inhibitors in ancient and modern Triticum species | Triticum | TSQ Vantage | Yes | 8 | Amylase/trypsin inhibitors; einkorn; emmer; LC-MS/MS; mass spectrometry; non-celiac gluten sensitivity (NCGS); spelt; stable isotope dilution assay; wheat | Geisslitz S, Longin CFH, Koehler P, Scherf KA. ... | PXD020714 |
| Temporal quantitative proteomics of mGluR-induced protein translation and phosphorylation in neurons | Rattus norvegicus | TSQ Altis | Yes | 1 | mGluR-LTD, proteomics, phosphoproteomics, synaptic plasticity, protein translation, AMPA receptor, bioorthogonal amino acid tagging, metabolic labeling, tandem mass tags | van Gelder CA, Penning R, Veth T, Catsburg LA, ... | PXD020777 |
| Longitudinal Protein Profiling using Targeted Proteomics and Recombinant Standards | Homo sapiens | Q Exactive HF | Yes | 2 | PRM PrEST Plasma SCAPIS | Kotol D, Hunt H, Hober A, Karlsson MJ, Forsströ... | PXD020797 |
| In vitro synthesis of 32 translation-factor proteins from a single template reveals impaired ribosomal processivity | Escherichia coli | 6460 Triple Quadrupole LC/MS | No | 12 | PURE, synthetic cell, ribosome processivity, gene expression, in vitro gene expression, cell free, in vitro evolution | Doerr A, Foschepoth D, Forster AC, Danelon C. I... | PXD020877 |
| Multiple reaction monitoring assays for large-scale quantitation of proteins from 20 mouse organs and tissues | Mus musculus | 6495B Triple Quadrupole LC/MS,6495A Triple Quadrupole LC/MS,6490 Triple Quadrupole LC/MS | Yes | 45 | Mouse tissue proteomics, MRM assay development, CPTAC, stable isotope-labelled standards, proteomic phenotyping, molecular phenotyping | Michaud SA, Pětrošová H, Sinclair NJ, Kinnear A... | PXD020930 |
| Characterization and statistical modeling of glycosylation changes in sickle cell disease and trait | Homo sapiens | LTQ Orbitrap Velos | No | 2 | RBC, red blood cell, glycomics, N-glycan, O-glycan, glycosylation | Ashwood HE, Ashwood C, Schmidt AP, Gundry RL, H... | |
| Dynamic glycoproteomics identifies a role of N-glycosylation and Galectin-1 on myogenesis and muscle development | Rattus norvegicus | 6330 Ion Trap LC/MS | No | 4 | N-glycan, rat, muscle, myoblast | Blazev R, Ashwood C, Abrahams JL, Chung LH, Fra... | |
| IP-MS Analysis of ESX-5 and ESX-1 Substrates Enables Mycobacterial Species Identification | Mycobacteria | Q Exactive HF-X | Yes | 1 | EsxN, IP-MS, Mycobacterium, species discrimination, tryptic peptides | Shu Q, Rajagopal M, Fan J, Zhan L, Kong X, He Y... | PXD021148 |
| Data used to demonstrate Peptide Correlation Analysis (PeCorA) | Mus musculus | Q Exactive | No | 1 | microglia peptides | | |
| A data-independent acquisition (DIA) assay library for quantitation of environmental effects on the kidney proteome of Oreochromis niloticus | Oreochromis niloticus | impact II | No | 1 | Nile tilapia, Kidney, DIA-LCMS2, Environmental salinity, Bottom-up proteomics, Label-free quantitative proteomics | Root L, Campo A, MacNiven L, Con P, Cnaani A, K... | |
| High throughput targeted proteomics assays for quantifying large-scale pathway proteins in Pseudomonas putida KT2440 | Pseudomonas putida KT2440 | TSQ Altis | Yes | 4 | targeted proteomics, Pseudomonas putida KT2440, mass spectrometry, selected reaction monitoring (SRM), central carbon metabolism | Gao Y, Fillmore TL, Munoz Munoz N, Bentley GJ, ... | |
| The calcium-permeable channel OSCA1.3 regulates plant stomatal immunity | Arabidopsis thaliana | Xevo TQ-S | No | 1 | phosphorylation, calcium channel, immunity, plant | Thor K, Jiang S, Michard E, George J, Scherzer ... | PXD020852 |
| A mass spectrometry-based targeted assay for detection of SARS-CoV-2 antigen from clinical specimens | Homo sapiens, SARS-CoV-2 | Orbitrap Exploris 480 | Yes | 2 | Human, SARS-CoV-2, COVID19, Clinical diagnosis, LC-MSMS, Swab, Coronavirus, Viral antigen, SRM/PRM, Targeted proteomics, AP-MS | Renuse S, Vanderboom PM, Maus AD, Kemp JV, Gurt... | |
| SARS-CoV-2_PRM_SRM_targeted_acquisitions | SARS-CoV2 | Q Exactive HF-X,TSQ Altis | No | 18 | SARS-CoV-2, COVID-19, targeted proteomics | Cardozo KHM, Lebkuchen A, Okai GG, Schuch RA, V... | PXD019300 |
| BAC-DROP: Rapid digestion of proteome fractionated via dissolvable polyacrylamide gel electrophoresis and its application to bottom-up proteomics workflow | Homo sapiens, Bos taurus, Hepatitis B virus | QTRAP 5500 | No | 7 | BAC-PAGE, Bottom-up proteomics, Dissolvable polyacrylamide gel, GeLC-MS, Rapid enzymatic digestion | Takemori A, Ishizaki J, Nakashima K, Shibata T,... | PXD021489 |
| Genome-scale metabolic rewiring to improve titers, rates and yields of the non-native non-ribosomal peptide product indigoidine at scale | Pseudomonas putida KT2440 | 6460 Triple Quadrupole LC/MS | No | 1 | Metabolic engineering, genome editing | Banerjee D, Eng T, Lau AK, Sasaki Y, Wang B, Ch... | PXD021570 |
| Proteomic characterization of human neural stem cells during in vitro differentiation | Homo sapiens | TripleTOF 5600+ | No | 1 | NSCs, neural differentiation, SWATH-MS | Červenka J, Tylečková J, Kupcová Skalníková H, ... | PXD021860 |
| Quantification of HER2 by Immunopeptide Enrichment and Targeted Mass Spectrometry in Formalin-Fixed Paraffin-Embedded (FFPE) and Frozen Breast Cancer Tissues | Homo sapiens | QTRAP 6500 | Yes | 4 | HER2, breast cancer, multiple reaction monitoring, Formalin-Fixed Paraffin-Embedded, FFPE, targeted mass spectrometry, immuno-MRM, immunopeptide enrichment, microheterogeneity | Kennedy JJ, Whiteaker JR, Kennedy LC, Bosch DE,... | PXD021893 |
| Targeted mass spectrometry-based assays for multiplex quantification of receptor tyrosine kinase, MAP Kinase, and AKT signaling | Homo sapiens | TSQ Quantiva,QTRAP 5500 | No | 4 | Cancer signaling, immuno-MRM, assay resource, quantitative proteomics, pharmacodynamics, targeted therapy, RAS, RTK, AKT, MAP kinase | Whiteaker JR, Sharma K, Hoffman MA, Kuhn E, Zha... | |
| The AML microenvironment catalyzes a step-wise evolution to gilteritinib resistance | Homo sapiens | TSQ Altis | Yes | 1 | : AML, FLT3, Tumor Microenvironment, Gilteritinib, Aurora Kinase B, NRAS, Drug Resistance, Tyrosine Kinase Inhibitor | Joshi, Sunil and Nechiporuk, Tamilla and Bottom... | PXD022083 |
| ‘The long tail of Covid 19’ - The detection of a prolonged inflammatory response after a SARS-CoV-2 infection in asymptomatic and mildly affected patients | Homo sapiens | Xevo TQ-S | No | 3 | sars-cov-2, covid19, inflammation | Doykov I, Hällqvist J, Gilmour KC, Grandjean L,... | PXD022159 |
| Assessment of streptavidin peptide shedding in streptavidin-based enrichment strategies | | | No | 1 | | Berg Luecke L, Gundry RL. Assessment of Strepta... | |
| Targeted MRM assay Complement System for Complement deficiencies | Homo sapiens | Xevo TQ-S | Yes | 4 | complement system, complementomics, complement deficiencies, complement-mediated diseases, multiplex targeted mass spectrometry, pathway analysis | Willems E, Lorés-Motta L, Zanichelli A, Suffrit... | PXD022416 |
| Microwave oven-assisted derivatization of histone proteoforms using trimethylacetic anhydride | Homo sapiens | Orbitrap Fusion Lumos | No | 1 | o Histone derivatization, trimethylacetic anhydride, epigenetics, mass spectrometry | Kuchaříková H, Dobrovolná P, Lochmanová G, Zdrá... | PXD022454 |
| A tailored phosphoaspartate probe unravels CprR as a response regulator in Pseudomonas aeruginosa interkingdom signaling | Pseudomonas aeruginosa PAO1 | Q Exactive Plus | Yes | 2 | Activity-based protein profiling, isotopically labeled tags, phosphorylation, response regulator, parallel reaction monitoring, adaptive resistance, antimicrobial peptide, P. aeruginosa | Allihn PWA, Hackl MW, Ludwig C, Hacker SM, Sieb... | PXD022470 |
| Validation of host proteins differentially expressed between COVID severe and non-severe plasma samples | Homo sapiens | TSQ Altis | Yes | 1 | COVID, Plasma, MRM, SARS-COV-2, host proteome | Dataset with publication pending - 10.3389/fphy... | PXD022475 |
| Targeted mass spectrometry quantification of total soy protein residues from commercially processed ingredients for food allergen management | Glycine max | Q Exactive Plus | No | 1 | Soybean; food allergen; quantification; LC-MS/MS; mass spectrometry | Chen S, Yang C, Downs M. Targeted mass spectrom... | PXD022639 |
| Cov-MS: a community-based template assay for clinical MS-based protein detection in Sars-Cov-2 patients | SARS-CoV-2, Homo sapiens | Xevo TQ-S,Xevo TQ-XS,TripleTOF 6600,TSQ Altis,Triple Quad 5500,6495A Triple Quadrupole LC/MS,Triple Quad 6500,Xevo TQD | No | 34 | SARS-Cov-2, proteomics, mass spectrometry, nasopharyngeal swabs, multiple reaction monitoring, QconCAT | In preparation (preprint on medRxiv) | |
| Improving SILAC quantification with data independent acquisition to investigate bortezomib-induced protein degradation | Homo sapiens | Q Exactive HF-X,TripleTOF 6600 | No | 4 | protein turnover, SILAC, protein degradation, data independent acquisition, quantitative proteomics, SILAC-DIA | Pino LK, Baeza J, Lauman R, Schilling B, Garcia... | PXD022659 |
| Surfactant-assisted one-pot sample preparation for label-free single-cell proteomics | Homo sapiens | TSQ Vantage | Yes | 1 | Surfactant-assisted one-pot sample preparation coupled with MS (SOP-MS), single-cell proteomics, nonionic surfactant, single cells, patient CTC-derived xenograft (PCDX) | Tsai CF, Zhang P, Scholten D, Martin K, Wang YT... | PXD022827 |
| The reproductive toxicant acrylamide modulates the mouse epididymal proteome to drive alterations to the sperm epigenome and dysregulate embryo development. | Mus musculus | Orbitrap Exploris 480 | No | 1 | acrylamide, embryo development, epididymis, proteome, small non-protein-coding RNA, spermatozoa, sperm maturation | Trigg NA, Skerrett-Byrne DA, Xavier MJ, Zhou W,... | PXD022876 |
| IgG M-protein quantification by PRM in blood of multiple myeloma patient | Homo sapiens | Orbitrap Fusion Lumos | No | 3 | multiple myeloma,PRM, clinical proteomics | McDonald Z, Taylor P, Liyasova M, Liu Q, Ma B. ... | PXD022980 |
| Validation of detected viral and host peptides from COVID-19 nasopharyngeal swab samples | SARS-CoV-2, Homo sapiens | TSQ Altis | Yes | 2 | COVID, Nasopharyngeal swabs, MRM, SARS-COV-2, host | Bankar R, Suvarna K, Ghantasala S, Banerjee A, ... | PXD021845 |
| Targeted quantification of phosphorylation sites in S. macrospora wildtype and STRIPAK-mutants | Sordaria macrospora | Q Exactive HF | Yes | 4 | PRM, Phosphoproteomics, STRIPAK | Dataset with publication pending | PXD023130 |
| Tissue plasminogen activator effects on fibrin volume and the ocular proteome in a juvenile rabbit model of lensectomy | New Zealand rabbit | Orbitrap Fusion Lumos | No | 1 | aqueous humor, eye, fibrin, rabbit, tissue plasminogen activator | | PXD023232 |
| Lysosomal targetomics in ghrKO mice reveals a role for chaperone-mediated autophagy in shaping the nucleocytosolic acetyl-coA production pathway | Mus musculus | Q Exactive HF | No | 2 | Aging, Chaperone-mediated autophagy, Endocrine regulation of autophagy, Endocrine regulation of aging, Acetyl-coA metabolism | publication pending | PXD023309 |